I had a problem recently where Eclipse couldn’t find my source files when remote debugging a particular application. It would stop and the breakpoint and show the class file with a “attach source” button, but pointing it to the source directory didn’t do anything.

It turns out that the solution was to add the project to the remote debug configuration.

This is done by “Run -> Debug configurations…”
Choose the remote config from the tree on the left
Click on the “Source” tab
Click on the “Add…” button
Follow the wizard.

Hope this helps anyone with the same problem.